Graftm

Description

graftm website  

GraftM is a tool for finding genes of interest in metagenomes, metatranscriptomes, and whole genomes. Using modular gene packages, GraftM will search the provided sequences using hmmsearch (HMMER) and place the identified sequences into a pre-constructed phylogenetic tree. The provides fast, phylogenetically informed community profiles and genome annotations.

Environment Modules

Run module spider graftm to find out what environment modules are available for this application.

System Variables

• HPC_GRAFTM_DIR - installation directory
• HPC_GRAFTM_BIN - executable directory

Citation

If you publish research that uses graftm you have to cite it as follows:

GraftM: a tool for scalable, phylogenetically informed classification of genes within metagenomes. Joel A Boyd Ben J Woodcroft Gene W Tyson Nucleic Acids Research, Volume 46, Issue 10, 1 June 2018, Pages e59, https://doi.org/10.1093/nar/gky174